POC Conf. Call 5-28-13
POC meeting, Webex Conference Call; Date: Tuesday May 28th, 2013 10am PST/1pm EST
In attendance: Absent:
fused collective tepal structure
An issue has been raised about using the term fused collective tepal structure from the Musa vocabulary:
From Chelsea Specht:" ... in Zingiberales there are sepals and petals, not tepals. and its a free petal, not a free tepal. and you can use the same terminology for the 'fused collective tepal structure' -- and technically, developmentally, its not fused: it just never separates. if we're talking about developmental genetics, that sort of thing matters."
See photo: Musa ornata
Originally added as part of this set: Musa Plant Structure terms in response to their request for a term "compound tepal"
- fused collective tepal structure (PO:0025138): A collective tepal structure that has as parts at least two fused tepals.
- Comment: This is a phenotype that is a cross-product of PO:0025021 (collective tepal structure) and PATO:0000642 (fused with). In Musa, there are there are 5 fused tepals which form 3 major lobes and 2 minor lobes.
This is not actually a cross-product.
The term "compound tepal" and "free tepal" are widely used in the literature and floras:
e.g. http://www.fruitipedia.com/leaf_banana%20Musa%20balbisiana.htm
http://www.botany.hawaii.edu/faculty/carr/mus.htm
http://www.efloras.org/florataxon.aspx?flora_id=2&taxon_id=240001486
tepal, petal and sepal
Need to also revise the definition of petals and sepals, open trackers
- petal (PO:0009032): A member of the corolla, the inner whorl of non-fertile parts surrounding the fertile organs of a flower, usually soft and colored conspicuously. [source: APweb:Glossary]
Revised def'n: A phyllome that occurs in the corolla, the inner whorl of non-fertile parts surrounding the fertile organs of a flower, usually soft and colored conspicuously. Only occurs in dicots?
- sepal (PO:0009031): A member of the (usually green) outer whorl of non-fertile parts surrounding the fertile organs of a flower. [source: APweb:Glossary]
Only occurs in dicots?
- tepal (PO:0009033): A phyllome that is part of a perianth in which all parts are similar in appearance and are neither petals nor sepals. [source: POC:curators]
- perianth (PO:0009058): A collective phyllome structure composed of two or more petals, sepals, or tepals.
free tepal (PO:0025136): A tepal that is separate from all other tepals.
tapetum types
Based on the discussion on the PO conf call 4-9-13, we need to add the two types of tapetum(s).
Comment from DWS: there are two types of tapetum: ameboid and secretory/glandular:
Need to determine if it is more appropriate to put them as child of tapetum or anther wall tapetum.
See references in the literature to: Sporne KR (1973) A Note on the Evolutionary Status of Tapetal Types in Dicotyledons. New Phytologist 72: 1173–1174 link
Will add as a comment on tapetum for now.
Corresponding stage terms: anther development stage (PO:0001004)
- E tapetum degeneration initiated stage (PO:0001032): Stage during which degeneration of the tapetum is initiated, as the deposition on the surface of the microspore primexine proceeds.
Although all the tapetal tissues will undergo degeneration, this term refers specifically to anther wall taptum.
Current name and definition of E tapetum degeneration initiated stage (PO:0001032):
New name and def'n: E 'anther wall' tapetum degeneration initiated stage (PO:0001032): An anther development stage during which degeneration of the anther wall tapetum (PO:0009071) is initiated, as the deposition on the surface of the microspore (PO:0020048) primexine proceeds.
Blackmore S, Wortley AH, Skvarla JJ, Rowley JR (2007) Pollen wall development in flowering plants. New Phytologist 174: 483–498
Upcoming meetings and Presentations 2013:
1st International Workshop on Semantics for Biodiversity (S4BIODIV), Montpellier, 26-30 May 2013
Registration Information ESWC 2013
Early Registration deadline March 17th
Agropolis Montpellier, the University of Montpellier and Bioversity are collaborating to organize a one-day workshop entitled 'Agrobiodiversity semantics' as part of the larger conference.
Held in parallel with the 10th Extended Semantic Web Conference (ESWC 2013)
Workshop date: May 27, 2013
MONOCOTS V Meeting at NYBG, July 5th - 14th, 2013
5th International Conference on Comparative Biology of Monocotyledons Friday, July 05, 2013 7:00 AM - Sunday, July 14, 2013 12:00 PM (Eastern Time)
The New York Botanical Garden & Fordham University
ICBO 2013, Concordia University, Montreal, Quebec July 7th - 9th 2013
4th International Conference on Biomedical Ontologies 2013 (ICBO2013)
Concordia University, Montreal, Quebec, July 7th - 9th 2013 call for papers
The conference aim is to foster discussion, exchange, and innovation in research and development in the areas Biomedical Ontology. Researchers and professionals from biology, medicine, computer science and engineering are invited to share their knowledge and experience.
The event is part of the Semantic Trilogy 2013 featuring:
- International Conference on Biomedical Ontologies (ICBO 2013)
- Canadian Semantic Web Symposium (CSWS 2013)
- Data Integration in the Life Sciences (DILS 2013)
Workshop on Semantic Systems Biology 2013 (SSB2013) will be held as part of the International Conference on Biomedical Ontologies (ICBO2013) at Concordia University, Montreal, Quebec, on July 7th, 2013. The event is part of the Semantic Trilogy 2013 (above)
Topics of interest include, but are not limited to:
- ontologies & terminologies for modeling computational biology
- ontologies & terminologies for simulation (and result data) in computational biology/medicine/neuroscience
- semantic web technologies for description, integration, query and discovery of models, simulations and result data
- semantic web technologies for biological data and analysis
- semantic annotations of bio-models
- applications of ontologies in computational systems biology/medicine/neuroscience
- semantic platforms for undertaking and visualizing simulation results
We welcome four types of submissions:
- short papers, up to 4 pages.
- long papers, up to 7 pages.
- position papers, up to 1 page.
- late breaking reports, up to 1 page.
See the ICBO website for further information on the submission types.
All submission are due on Monday, April 15 2013. Notification of acceptance: May 6th, 2013
Botanical Society Meeting July 27-31st New Orleans
- MAG is planning to present the work she has been doing with the images and slides, will circulate the abstract
